embryogrowth (version 9.5)

resultNest_mcmc_6p_SSM: Result of the mcmc using the nest database

Description

Fit using the nest database

Usage

resultNest_mcmc_6p_SSM

Format

A list of class mcmcComposite with mcmc result for data(nest) with 6 parameters and Gompertz model of growth

Author

Marc Girondot

Details

Result of the mcmc using the nest database

References

Girondot, M., & Kaska, Y. (2014). A model to predict the thermal reaction norm for the embryo growth rate from field data. Journal of Thermal Biology, 45, 96-102. doi: 10.1016/j.jtherbio.2014.08.005

Examples

if (FALSE) {
library(embryogrowth)
data(nest)
formated <- FormatNests(nest)
# The initial parameters value can be:
# "T12H", "DHA",  "DHH", "Rho25"
# Or
# "T12L", "DT", "DHA",  "DHH", "DHL", "Rho25"
x <- structure(c(115.758929130522, 428.649022170996, 503.687251738993, 
12.2621455821612, 306.308841227278, 116.35048615105), .Names = c("DHA", 
"DHH", "DHL", "DT", "T12L", "Rho25"))
pfixed <- c(rK=2.093313)
resultNest_6p_SSM <- searchR(parameters=x, fixed.parameters=pfixed, 
	temperatures=formated, integral=integral.Gompertz, M0=1.7, 
	hatchling.metric=c(Mean=39.33, SD=1.92))
data(resultNest_6p)
pMCMC <- TRN_MHmcmc_p(resultNest_6p_SSM, accept=TRUE)
# Take care, it can be very long, sometimes several days
resultNest_mcmc_6p_SSM <- GRTRN_MHmcmc(result=resultNest_6p_SSM,  
 adaptive = TRUE,
	parametersMCMC=pMCMC, n.iter=10000, n.chains = 1, n.adapt = 0,  
	thin=1, trace=TRUE)
data(resultNest_mcmc_6p_SSM)
plot(resultNest_mcmc_6p_SSM, parameters="T12L", main="", xlim=c(290, 320), bty="n")
}